Defects

PT-3656 - Pushing patient record and assigning it to one of user group does not workPT-3667 - Unauthenticated users can edit the PatientTemplate and FamilyTemplatePT-2391 - Clicking N/A on a dropdown prenatal phenotype doesn't do the same on the duplicatePT-3464 - Logging out while in edit mode can lock the object for 30 minutesPT-3543 - The SVG rasterizer service caches the first requested size of the generated imagePT-3552 - XSS vulnerability in patient form dataPT-3558 - JSON export missing the Referrer (the report creator) infoPT-3565 - Variants cannot be deleted via the REST patient APIPT-3597 - Cannot delete a family via RESTPT-3585 - Newly added genes and variants have incorrect delete urlsPT-3609 - Users who aren't subscribed to any study unable to see when a patient record belongs to a studyPT-3610 - View-only collaborators are presented with the option to change the study of a patient recordPT-3648 - PhenoTips won't run on Windows if username contains space characterPT-3586 - Free text phenotypes get copied to features array in the pedigree JSON representationPT-3588 - Free text phenotypes in pedigree JSON of non-patient node gets duplicated with every savePT-3664 - Remove the top owner filter from the Shared Workgroup Cases table

Feb262018

The PhenoTips development team is happy to announce the availability of the PhenoTips 1.4 Milestone 3 release. The highlights of the release are:

New Features and Improvements

Patient data

Support for Multiple external IDs per patient

Added option to list family members on the Patient record form

The "Perinatal complications" subsection (under the "Prenatal and perinatal history" section) is now shown on the patient form

Added functionality for displaying additional tabs

Added ability to enter groups in the owner and collaborator fields of the filtering panel, push and permission dialogs

Decreased the frequency of auto save from 10 seconds to 1 minute

Families and pedigrees

New option to remove the corresponding patient record when deleting an individual from the pedigree

Added Export PDF option to the More Action menu of the Family Page

Uniqueness check for family external ID

Navigation pages

Now displaying homepage gadget extra actions as icons only instead of text

Active Groups gadget is replaced with new My Groups gadget on homepage

Added link to browse all owned patient records on the My patients gadget

Added owner column to browse all families page

Translations

Added support for French, German and Russian HPO translations

Consents

Disallow setting mandatory consent as required

Push dialog now displays consented fields only

Text mining

Text mining now runs only when "Indication for referral" or "Medical history" fields are edited

Text mining is temporarily disabled by default

Administration

Auditability of permissions and data sharing

Implemented indexing of OncoTree

Group administrators are now called Group managers

Defects

PT-2175 - Extended negative prenatal phenotypes never storedPT-2238 - Some occasional failures to save records have been avertedPT-2391 - Clicking N/A on a dropdown prenatal phenotype doesn't do the same on the duplicatePT-3082 - Excel export list EnsembleIDs in "Gene name" and "Gene symbol" columnsPT-3104 - Different/inconsistent behavior when filtering in Advanced data filtering and ExportPT-3335 - Obstetric History doesn't appear as an exportable/pushable information in the export preferences dialogsPT-3347 - Parental age at EDD doesn't appear to be exportable in the excel formatPT-3442 - Users can remove from a family patients that they can't normally accessPT-3450 - Filtering by member in the phenotips-groups macro ignores the Administrators subgroupPT-3455 - The consanguinity status of a patient isn't set when identifiable from the pedigreePT-3460 - Non-categorized custom phenotypes disappear from saved patient recordPT-3473 - Filtering by gene doesn't work as expected in advanced filters, push and exportPT-3479 - Guest users cannot access the families that they createPT-3481 - Unable to import pedigree using BOADICEA formatPT-3486 - Family permission dialog cannot be moved aroundPT-3488 - Pedigree action buttons not looking good when scaling down below 90%PT-3493 - When using the PT embeddable skin, the "New Patient" button on the homepage doesn't workPT-3503 - Labels not shown on family formPT-3505 - Delete pedigree button label is white in some casesPT-3524 - 0 values for the Obstetric History fields are lost in the JSON exportPT-3533 - OMIM is no longer reindexablePT-3534 - After reindexing vocabularies, spellchecked suggestions no longer workPT-3536 - Patient/Family search widget does not work for guest usersPT-3542 - Records created by guest users should be accessible to everyonePT-3543 - The SVG rasterizer service caches the first requested size of the generated imagePT-3565 - Variants cannot be deleted via the REST patient API

Improvements

Defects

PT-2986 - The "Perinatal complications" subsection (under the "Prenatal and perinatal history" section) is no longer shown on the patient formPT-3442 - Users can remove from a family patients that they can't normally accessPT-3499 - "Browse groups" button is missing from the "My Groups" gadget